Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_34783

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 333

Length: 555
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27


Found at i:129 original size:42 final size:42

Alignment explanation


    Indices: 49--137  Score: 99
    Period size: 42  Copynumber: 2.1  Consensus size: 42

         39 CTTAGTCTTG

                *   *     *             *          *  
         49 GTCCATCCTTCCCATGCCCAAAACTCACCACAAGACTACTTA
          1 GTCCTTCCCTCCCAAGCCCAAAACTCACAACAAGACTACCTA

                                 *          **        
         91 GTCCTTCCCTCCCAAGCCCAAGACTCACAACATTACTACCTA
          1 GTCCTTCCCTCCCAAGCCCAAAACTCACAACAAGACTACCTA

                  
        133 G-CCTT
          1 GTCCTT

        138 GGGAGGGGAC


Statistics
Matches: 39,  Mismatches: 8, Indels: 1
        0.81            0.17        0.02

Matches are distributed among these distances:
  41    4  0.10
  42   35  0.90

ACGTcount: A:0.28, C:0.42, G:0.08, T:0.22


Consensus pattern (42 bp):   
GTCCTTCCCTCCCAAGCCCAAAACTCACAACAAGACTACCTA
Done.